package org.cbioportal.legacy.web;

import io.swagger.v3.oas.annotations.Operation;
import io.swagger.v3.oas.annotations.Parameter;
import io.swagger.v3.oas.annotations.media.ArraySchema;
import io.swagger.v3.oas.annotations.media.Content;
import io.swagger.v3.oas.annotations.media.Schema;
import io.swagger.v3.oas.annotations.responses.ApiResponse;
import io.swagger.v3.oas.annotations.tags.Tag;
import jakarta.validation.constraints.Size;
import java.util.List;
import java.util.stream.Collectors;
import org.cbioportal.legacy.model.ReferenceGenomeGene;
import org.cbioportal.legacy.service.GeneMemoizerService;
import org.cbioportal.legacy.service.ReferenceGenomeGeneService;
import org.cbioportal.legacy.service.exception.GeneNotFoundException;
import org.cbioportal.legacy.web.config.InternalApiTags;
import org.cbioportal.legacy.web.config.annotation.InternalApi;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.http.HttpStatus;
import org.springframework.http.MediaType;
import org.springframework.http.ResponseEntity;
import org.springframework.validation.annotation.Validated;
import org.springframework.web.bind.annotation.PathVariable;
import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RequestMapping;
import org.springframework.web.bind.annotation.RequestMethod;
import org.springframework.web.bind.annotation.RestController;

@InternalApi
@RestController
@Validated
@Tag(name = InternalApiTags.REFERENCE_GENOME_GENES, description = " ")
public class ReferenceGenomeGeneController {
  private static final int GENE_MAX_PAGE_SIZE = 100000;
  private static final String GENE_DEFAULT_PAGE_SIZE = "100000";

  @Autowired private ReferenceGenomeGeneService referenceGenomeGeneService;

  @Autowired private GeneMemoizerService geneMemoizerService;

  /**
   * The memoization logic in this method is a temporary fix to make this work until Ehcache is
   * working correctly on cbioportal.org. This endpoint creates a large response and seems to bloat
   * the webserver's heap size, leading to poor performance and crashes. The caching seems to
   * improve processor load, heap size and response time.
   */
  @RequestMapping(
      value = "/api/reference-genome-genes/{genomeName}",
      method = RequestMethod.GET,
      produces = MediaType.APPLICATION_JSON_VALUE)
  @Operation(description = "Get all reference genes")
  @ApiResponse(
      responseCode = "200",
      description = "OK",
      content =
          @Content(
              array = @ArraySchema(schema = @Schema(implementation = ReferenceGenomeGene.class))))
  public ResponseEntity<List<ReferenceGenomeGene>> getAllReferenceGenomeGenes(
      @Parameter(required = true, description = "Name of Reference Genome hg19") @PathVariable
          String genomeName) {

    List<ReferenceGenomeGene> genes = geneMemoizerService.fetchGenes(genomeName);
    if (genes == null) {
      genes = referenceGenomeGeneService.fetchAllReferenceGenomeGenes(genomeName);
      geneMemoizerService.cacheGenes(genes, genomeName);
    }
    return new ResponseEntity<>(genes, HttpStatus.OK);
  }

  @RequestMapping(
      value = "/api/reference-genome-genes/{genomeName}/{geneId}",
      method = RequestMethod.GET,
      produces = MediaType.APPLICATION_JSON_VALUE)
  @Operation(description = "Get a gene of a reference genome of interest")
  @ApiResponse(
      responseCode = "200",
      description = "OK",
      content = @Content(schema = @Schema(implementation = ReferenceGenomeGene.class)))
  public ResponseEntity<ReferenceGenomeGene> getReferenceGenomeGene(
      @Parameter(required = true, description = "Name of Reference Genome hg19") @PathVariable
          String genomeName,
      @Parameter(required = true, description = "Entrez Gene ID 207") @PathVariable Integer geneId)
      throws GeneNotFoundException {

    return new ResponseEntity<>(
        referenceGenomeGeneService.getReferenceGenomeGene(geneId, genomeName), HttpStatus.OK);
  }

  @RequestMapping(
      value = "/api/reference-genome-genes/{genomeName}/fetch",
      method = RequestMethod.POST,
      consumes = MediaType.APPLICATION_JSON_VALUE,
      produces = MediaType.APPLICATION_JSON_VALUE)
  @Operation(description = "Fetch genes of reference genome of interest")
  @ApiResponse(
      responseCode = "200",
      description = "OK",
      content =
          @Content(
              array = @ArraySchema(schema = @Schema(implementation = ReferenceGenomeGene.class))))
  public ResponseEntity<List<ReferenceGenomeGene>> fetchReferenceGenomeGenes(
      @Parameter(required = true, description = "Name of Reference Genome hg19") @PathVariable
          String genomeName,
      @Parameter(required = true, description = "List of Gene IDs")
          @Size(min = 1, max = GENE_MAX_PAGE_SIZE)
          @RequestBody
          List<String> geneIds) {

    if (isInteger(geneIds.get(0))) {
      List<Integer> newIds =
          geneIds.stream().map(s -> Integer.parseInt(s)).collect(Collectors.toList());
      return new ResponseEntity<>(
          referenceGenomeGeneService.fetchGenesByGenomeName(newIds, genomeName), HttpStatus.OK);
    } else {
      return new ResponseEntity<>(
          referenceGenomeGeneService.fetchGenesByHugoGeneSymbolsAndGenomeName(geneIds, genomeName),
          HttpStatus.OK);
    }
  }

  private boolean isInteger(String s) {
    try {
      Integer.parseInt(s);
    } catch (NumberFormatException | NullPointerException e) {
      return false;
    }
    return true;
  }
}
